User: Monther Alhamdoosh

Reputation:
40
Status:
New User
Location:
Australia/Melbourne/CSL Limited
Twitter:
malhamdoosh
Last seen:
3 months, 3 weeks ago
Joined:
3 years, 6 months ago
Email:
m*********@gmail.com

Research Scientist - Bioinformatics 

Posts by Monther Alhamdoosh

<prev • 13 results • page 2 of 2 • next >
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Answer: A: EGSEA usage with microarray data (with vooma)?
... Hi Pekka, Thanks for your questions. We do not mention that EGSEA works with microarray datasets since some of the base methods' parameters need to be tuned to suite microarray datasets and we have not tested it with this type of data. We will work on this soon. Let us know if things work well with ...
written 2.8 years ago by Monther Alhamdoosh40
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Comment: C: EGSEA: how does the program generate the value for the up or down regulation of
... Hi Ying,  No worries! That's right. EGSEA produces p-values that are much smaller than individual methods, particularly for gene sets that are significant in the majority of base methods. Another factor that affects the scale of EGSEA p-values is the individuals methods that are used as some of the ...
written 3.1 years ago by Monther Alhamdoosh40
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Answer: A: EGSEA: how does the program generate the value for the up or down regulation of
... Hi Ying,  Thanks for trying out our package! The Direction column in EGSEA is calculated based on the logFC values that are calculated using limma::topTable (if it was not provided). We simply count the number of genes that are up- and down-regulated in the gene set and make a decision based on the ...
written 3.1 years ago by Monther Alhamdoosh40

Latest awards to Monther Alhamdoosh

Scholar 2.7 years ago, created an answer that has been accepted. For A: EGSEA - failing to write report
Scholar 2.7 years ago, created an answer that has been accepted. For A: EGSEA - failing to write report

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